GORULE Violations Assigned by EcoliWiki
Generated by GOA at
- 2026-07-25 08:02:43.397865
Total Lines
64680
EcoliWiki
1889
Valid Lines
1865 (98.73%)
Total Problems Detected
24
File Header
!gaf-version: 2.2
!generated-by: EcoCyc
!date-generated: 2025-04-25
!URL: https://ecocyc.org
!Project-name: EcoCyc and EcoliWiki collaborative annotation for E. coli K-12
!Project-release: 29.1
!Contact Email: [email protected]
!
| Rule | Description | Count |
|---|---|---|
| ⛔️GORULE:0000001 | GAF lines are parsed according to GAF 2.2 specifications | 11 |
| ✅GORULE:0000002 | No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515' | 0 |
| ✅GORULE:0000005 | IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations are not allowed for direct annotations to protein binding ; GO:0005515 or GO:0005488 binding | 0 |
| ✅GORULE:0000006 | IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC | 0 |
| ✅GORULE:0000007 | IPI should not be used with GO:0003824 catalytic activity or descendants | 0 |
| ⛔️GORULE:0000008 | No annotations should be made to uninformative high level terms | 9 |
| ✅GORULE:0000011 | ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND | 0 |
| ⚠️GORULE:0000013 | Taxon-appropriate annotation check | 1 |
| ✅GORULE:0000015 | Dual species taxon check | 0 |
| ✅GORULE:0000016 | With/From: IC annotations require a With/From GO ID | 0 |
| ✅GORULE:0000017 | IDA annotations must not have a With/From entry | 0 |
| ✅GORULE:0000018 | IPI annotations require a With/From entry | 0 |
| ⛔️GORULE:0000020 | Automatic repair of annotations to merged or obsoleted terms | 16 |
| ✅GORULE:0000022 | Check for, and filter, annotations made to retracted publications | 0 |
| ✅GORULE:0000027 | Each identifier in GAF is valid | 0 |
| ✅GORULE:0000030 | Obsolete GO_REFs are not allowed | 0 |
| ✅GORULE:0000033 | Group-specific Reference IDs are not allowed, only public reference IDs (PMID, doi, or GO_REF) | 0 |
| ✅GORULE:0000039 | Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants | 0 |
| ✅GORULE:0000042 | Qualifier: IKR evidence code requires a NOT qualifier | 0 |
| ✅GORULE:0000043 | Check for valid combination of evidence code and GO_REF | 0 |
| ✅GORULE:0000046 | The 'with' field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to 'self-binding' terms. | 0 |
| ✅GORULE:0000050 | Annotations to ISS, ISA and ISO should not be self-referential | 0 |
| ✅GORULE:0000053 | 'NOT' annotation should not have extension | 0 |
| ✅GORULE:0000055 | References should have only one ID per ID space | 0 |
| ✅GORULE:0000063 | Annotations using ISS/ISA/ISO evidence should refer to a gene product (in the 'with' column) | 0 |
| ⚠️GORULE:0000065 | Term candidate for obsoletion | 9 |